Title: Ternary Search Tree for Auto-Completion and Spell Checking
Description: A ternary search tree is a type of prefix tree with up to three children and the ability for incremental string search. The package uses this ability for word auto-completion and spell checking. Includes a dataset with the 10001 most frequent English words.
Author: Ricardo Merino [aut, cre],
Samantha Fernandez [ctb]
Maintainer: Ricardo Merino <ricardo.merino.raldua@gmail.com>
Diff between TSTr versions 1.0 dated 2015-09-06 and 1.1 dated 2015-10-07
TSTr-1.0/TSTr/R/updateTree.R |only TSTr-1.0/TSTr/R/updateTree.default.R |only TSTr-1.0/TSTr/R/updateTree.tstTree.R |only TSTr-1.0/TSTr/inst/doc/index.html |only TSTr-1.0/TSTr/man/updateTree.Rd |only TSTr-1.1/TSTr/DESCRIPTION | 14 +- TSTr-1.1/TSTr/MD5 | 73 ++++++++--- TSTr-1.1/TSTr/NAMESPACE | 24 +++ TSTr-1.1/TSTr/R/Add.R | 2 TSTr-1.1/TSTr/R/Addlist.R |only TSTr-1.1/TSTr/R/PNcheck.R |only TSTr-1.1/TSTr/R/PNcheck.default.R |only TSTr-1.1/TSTr/R/PNcheck.tstTree.R |only TSTr-1.1/TSTr/R/SDcheck.R |only TSTr-1.1/TSTr/R/SDcheck.default.R |only TSTr-1.1/TSTr/R/SDcheck.dist1_DT.R |only TSTr-1.1/TSTr/R/SDcheck.dist2_DT.R |only TSTr-1.1/TSTr/R/SDcheck.dist3_DT.R |only TSTr-1.1/TSTr/R/SDcheck.spellTree_1.R |only TSTr-1.1/TSTr/R/SDcheck.spellTree_2.R |only TSTr-1.1/TSTr/R/SDcheck.spellTree_3.R |only TSTr-1.1/TSTr/R/SDkeeper.R |only TSTr-1.1/TSTr/R/SDkeeper.default.R |only TSTr-1.1/TSTr/R/addToTree.R |only TSTr-1.1/TSTr/R/addToTree.default.R |only TSTr-1.1/TSTr/R/addToTree.tstTree.R |only TSTr-1.1/TSTr/R/crearDT.R |only TSTr-1.1/TSTr/R/crearFullDT.R |only TSTr-1.1/TSTr/R/crearFullTree.R |only TSTr-1.1/TSTr/R/delList.R |only TSTr-1.1/TSTr/R/delete.R |only TSTr-1.1/TSTr/R/deletion1.R |only TSTr-1.1/TSTr/R/deletion2.R |only TSTr-1.1/TSTr/R/deletion3.R |only TSTr-1.1/TSTr/R/insertion.R |only TSTr-1.1/TSTr/R/matricear.R |only TSTr-1.1/TSTr/R/newTree.R | 1 TSTr-1.1/TSTr/R/replace.R |only TSTr-1.1/TSTr/R/searchTreeSD.R |only TSTr-1.1/TSTr/R/searchWordSD.R |only TSTr-1.1/TSTr/R/spellSD.R |only TSTr-1.1/TSTr/R/spellTree_1.R |only TSTr-1.1/TSTr/R/spellTree_2.R |only TSTr-1.1/TSTr/R/spellTree_3.R |only TSTr-1.1/TSTr/R/suggestions.R |only TSTr-1.1/TSTr/R/transpose.R |only TSTr-1.1/TSTr/R/variations.R |only TSTr-1.1/TSTr/build/TSTr.pdf |only TSTr-1.1/TSTr/build/vignette.rds |binary TSTr-1.1/TSTr/inst/doc/TSTr.R | 19 ++- TSTr-1.1/TSTr/inst/doc/TSTr.Rmd | 113 +++++++++++++++--- TSTr-1.1/TSTr/inst/doc/TSTr.html | 213 ++++++++++++++++++++++++++-------- TSTr-1.1/TSTr/man/PNcheck.Rd |only TSTr-1.1/TSTr/man/SDcheck.Rd |only TSTr-1.1/TSTr/man/SDkeeper.Rd |only TSTr-1.1/TSTr/man/TSTr-package.Rd | 20 +-- TSTr-1.1/TSTr/man/addToTree.Rd |only TSTr-1.1/TSTr/man/newTree.Rd | 2 TSTr-1.1/TSTr/vignettes/TSTr.Rmd | 113 +++++++++++++++--- TSTr-1.1/TSTr/vignettes/Thumbs.db |binary TSTr-1.1/TSTr/vignettes/banner.jpg |only TSTr-1.1/TSTr/vignettes/bannera.html |only 62 files changed, 482 insertions(+), 112 deletions(-)
Title: Retrieving, Organizing, and Analyzing Estuary Monitoring Data
Description: Tools for retrieving, organizing, and analyzing environmental
data from the System Wide Monitoring Program of the National Estuarine
Research Reserve System. These tools address common challenges
associated with continuous time series data for environmental decision
making.
Author: Marcus W. Beck [aut, cre]
Maintainer: Marcus W. Beck <mbafs2012@gmail.com>
Diff between SWMPr versions 2.1.0 dated 2015-08-10 and 2.1.4 dated 2015-10-07
DESCRIPTION | 8 +- MD5 | 24 +++---- NAMESPACE | 2 R/swmpr_analyze.R | 166 +++++++++++++++++++++++++++++++------------------ R/swmpr_misc.R | 4 - R/swmpr_organize.R | 20 +++-- R/swmpr_retrieval.R | 6 - man/aggremetab.Rd | 10 ++ man/comb.Rd | 2 man/na.approx.swmpr.Rd | 1 man/plot_metab.Rd | 3 man/setstep.Rd | 8 +- man/smoother.Rd | 12 +-- 13 files changed, 161 insertions(+), 105 deletions(-)
Title: Dynamic Extensions for Network Objects
Description: Simple interface routines to facilitate the handling of network objects with complex intertemporal data. This is a part of the "statnet" suite of packages for network analysis.
Author: Carter T. Butts [aut],
Ayn Leslie-Cook [aut],
Pavel N. Krivitsky [aut],
Skye Bender-deMoll [aut, cre],
Zack Almquist [ctb],
David R. Hunter [ctb],
Li Wang [ctb],
Kirk Li [ctb],
Steven M. Goodreau [ctb],
Jeffrey Horner [ctb],
Martina Morris [ctb]
Maintainer: Skye Bender-deMoll <skyebend@uw.edu>
Diff between networkDynamic versions 0.8.0 dated 2015-09-21 and 0.8.1 dated 2015-10-07
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- inst/doc/networkDynamic.pdf |binary tests/utils_tests.R | 2 +- 4 files changed, 8 insertions(+), 8 deletions(-)
More information about networkDynamic at CRAN
Permanent link
Title: Multivariate Nonparametric Methods
Description: A collection of multivariate nonparametric methods, selected in part to support an MS level course in nonparametric statistical methods. Methods include adjustments for multiple comparisons, implementation of multivariate Mann-Whitney-Wilcoxon testing, inversion of these tests to produce a confidence region, some permutation tests for linear models, and some algorithms for calculating exact probabilities associated with one- and two- stage testing involving Mann-Whitney-Wilcoxon statistics.
Author: John E. Kolassa & Stephane Jankowski
Maintainer: John E. Kolassa <kolassa@stat.rutgers.edu>
Diff between MultNonParam versions 1.2 dated 2015-10-05 and 1.2.1 dated 2015-10-07
DESCRIPTION | 6 +++--- MD5 | 9 +++++---- R/symscorestat.R | 2 +- inst/Makefile |only inst/testperm.f90 | 4 +++- src/signtestperm.f90 | 12 +++++++++--- 6 files changed, 21 insertions(+), 12 deletions(-)
Title: Kernel Smoothing
Description: Kernel smoothers for univariate and multivariate data.
Author: Tarn Duong <tarn.duong@gmail.com>
Maintainer: Tarn Duong <tarn.duong@gmail.com>
Diff between ks versions 1.9.4 dated 2015-03-06 and 1.9.5 dated 2015-10-07
CHANGELOG | 9 ++++- DESCRIPTION | 10 +++--- MD5 | 66 +++++++++++++++++++++---------------------- NAMESPACE | 10 +++++- R/kcde.R | 29 +++++++++---------- R/kcopula.R | 12 ++++++- R/kda.R | 73 +++++++++++++++++++++--------------------------- R/kdde.R | 20 ++----------- R/kde.R | 44 +++++++++++++--------------- R/normal.R | 2 - build/vignette.rds |binary inst/doc/kde.pdf |binary man/Hlscv.Rd | 3 - man/Hns.Rd | 3 - man/Hpi.Rd | 21 ++++++------- man/Hscv.Rd | 5 +-- man/binning.Rd | 1 man/contour.Rd | 3 + man/ise.mixt.Rd | 1 man/kcde.Rd | 16 +++++----- man/kcopula.Rd | 4 +- man/kda.Rd | 8 ++--- man/kdde.Rd | 3 - man/kde.Rd | 14 ++++----- man/kfe.Rd | 7 +--- man/kroc.Rd | 9 +++-- man/ks-package.Rd | 8 ++--- man/mixt.Rd | 2 - man/plot.kcde.Rd | 10 +++--- man/plot.kda.Rd | 17 +++++------ man/plot.kdde.Rd | 9 ++--- man/plot.kde.Rd | 31 ++++++++++---------- man/plot.kde.loctest.Rd | 6 +-- man/pre.transform.Rd | 4 -- 34 files changed, 222 insertions(+), 238 deletions(-)
Title: Invariant Causal Prediction
Description: Confidence intervals for causal effects, using data collected in different experimental or environmental conditions. Hidden variables can be included in the model with a more experimental version.
Author: Nicolai Meinshausen
Maintainer: Nicolai Meinshausen <meinshausen@stat.math.ethz.ch>
Diff between InvariantCausalPrediction versions 0.4-0 dated 2015-10-01 and 0.4-1 dated 2015-10-07
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/ICP.R | 3 ++- R/hiddenICP.R | 4 ++-- R/print.InvariantCausalPrediction.R | 8 ++++---- R/print.hiddenInvariantCausalPrediction.R | 6 +++--- 6 files changed, 20 insertions(+), 19 deletions(-)
More information about InvariantCausalPrediction at CRAN
Permanent link
Title: Dose-Response Data Evaluation
Description: A somewhat outdated package of basic and easy-to-use functions for
fitting dose-response curves to continuous dose-response data, calculating some
(eco)toxicological parameters and plotting the results. Please consider using
the more powerful and actively developed 'drc' package. Functions that are
fitted are the cumulative density function of the lognormal distribution
(probit fit), of the logistic distribution (logit fit), of the weibull
distribution (weibull fit) and a linear-logistic model ("linlogit" fit),
derived from the latter, which is used to describe data showing stimulation at
low doses (hormesis). In addition, functions checking, plotting and retrieving
dose-response data retrieved from a database accessed via RODBC are included.
As an alternative to the original fitting methods, the algorithms from the drc
package can be used.
Author: Johannes Ranke [aut, cre]
Maintainer: Johannes Ranke <jranke@uni-bremen.de>
Diff between drfit versions 0.6.3 dated 2014-07-28 and 0.6.4 dated 2015-10-07
DESCRIPTION | 40 +++++++++++++++++++++------------------- MD5 | 14 +++++++------- NAMESPACE | 10 +++------- R/checkexperiment.R | 14 +++++++++----- R/checksubstance.R | 10 +++++++--- R/drdata.R | 16 ++++++++++------ data/XY.rda |binary inst/doc/drfit-Rnews.pdf |binary 8 files changed, 57 insertions(+), 47 deletions(-)
Title: Simple Variable Treatment
Description: Prepares variables so that data has fewer exceptional cases, making it easier to safely use models in production. Common problems 'vtreat' defends against: Inf, NA, too many categorical values, rare categorical values, new categorical values (levels seen during application, but not during training). 'vtreat::prepare' should be used as you would use 'model.matrix'.
Author: John Mount, Nina Zumel
Maintainer: John Mount <jmount@win-vector.com>
Diff between vtreat versions 0.5.16 dated 2015-09-13 and 0.5.18 dated 2015-10-07
DESCRIPTION | 8 MD5 | 37 +-- NAMESPACE | 1 R/vtreat.R | 232 ++++++++++++++--------- README.md | 27 +- build/vignette.rds |binary inst/doc/vtreat.R | 16 + inst/doc/vtreat.Rmd | 66 ++++-- inst/doc/vtreat.html | 393 +++++++++++++++++++++++----------------- inst/doc/vtreatOverfit.R | 4 inst/doc/vtreatOverfit.Rmd | 20 +- inst/doc/vtreatOverfit.html | 123 ++++++------ man/designTreatmentsC.Rd | 22 +- man/designTreatmentsN.Rd | 14 - man/prepare.Rd | 6 man/vtreat-package.Rd | 4 tests/testthat/testRareCases.R |only tests/testthat/testWeirdTypes.R | 30 +-- vignettes/vtreat.Rmd | 50 ++--- vignettes/vtreatOverfit.Rmd | 20 +- 20 files changed, 609 insertions(+), 464 deletions(-)
Title: Multivariate Dependence Modeling with Vines
Description: Implementation of the vine graphical model for building
high-dimensional probability distributions as a factorization of
bivariate copulas and marginal density functions. This package
provides S4 classes for vines (C-vines and D-vines) and methods
for inference, goodness-of-fit tests, density/distribution
function evaluation, and simulation.
Author: Yasser Gonzalez-Fernandez [aut, cre],
Marta Soto [aut],
Joris Meys [ctb]
Maintainer: Yasser Gonzalez-Fernandez <ygonzalezfernandez@gmail.com>
Diff between vines versions 1.1.3 dated 2015-03-25 and 1.1.4 dated 2015-10-07
vines-1.1.3/vines/tests/hfunctions.R |only vines-1.1.4/vines/DESCRIPTION | 33 ++++++++------ vines-1.1.4/vines/MD5 | 57 +++++++++++++------------ vines-1.1.4/vines/NAMESPACE | 5 -- vines-1.1.4/vines/NEWS | 8 +++ vines-1.1.4/vines/R/Vine.R | 24 +++++----- vines-1.1.4/vines/R/dimnames.R | 24 +++++----- vines-1.1.4/vines/R/dvine.R | 24 +++++----- vines-1.1.4/vines/R/h.R | 67 ++++++++++++++---------------- vines-1.1.4/vines/R/hinverse.R | 54 +++++++++++------------- vines-1.1.4/vines/R/pvine.R | 24 +++++----- vines-1.1.4/vines/R/rvine.R | 24 +++++----- vines-1.1.4/vines/R/show.R | 24 +++++----- vines-1.1.4/vines/R/vineFit.R | 24 +++++----- vines-1.1.4/vines/R/vineFitML.R | 24 +++++----- vines-1.1.4/vines/R/vineGoF.R | 24 +++++----- vines-1.1.4/vines/R/vineIter.R | 24 +++++----- vines-1.1.4/vines/R/vineOrder.R | 24 +++++----- vines-1.1.4/vines/R/vinePIT.R | 24 +++++----- vines-1.1.4/vines/R/vineParameters.R | 24 +++++----- vines-1.1.4/vines/inst/CITATION | 2 vines-1.1.4/vines/man/h-methods.Rd | 31 ++++++++----- vines-1.1.4/vines/man/hinverse-methods.Rd | 25 ++++++----- vines-1.1.4/vines/src/h.c | 61 +++++++++++++-------------- vines-1.1.4/vines/src/h.h | 47 ++++++++++----------- vines-1.1.4/vines/src/hinverse.c | 49 ++++++++++----------- vines-1.1.4/vines/src/hinverse.h | 41 ++++++++---------- vines-1.1.4/vines/src/register.c | 55 ++++++++++++------------ vines-1.1.4/vines/tests/testthat |only vines-1.1.4/vines/tests/testthat.R |only 30 files changed, 431 insertions(+), 416 deletions(-)
Title: Vectorised Tools for URL Handling and Parsing
Description: A toolkit for handling URLs that so far includes functions for URL
encoding and decoding, parsing, and parameter extraction. All functions are
designed to be both fast and entirely vectorised. It is intended to be
useful for people dealing with web-related datasets, such as server-side
logs, although may be useful for other situations involving large sets of
URLs.
Author: Oliver Keyes [aut, cre], Jay Jacobs [aut, cre], Mark Greenaway [ctb],
Bob Rudis [ctb]
Maintainer: Oliver Keyes <ironholds@gmail.com>
Diff between urltools versions 1.2.1 dated 2015-08-31 and 1.3.1 dated 2015-10-07
urltools-1.2.1/urltools/man/suffix_refresh.Rd |only urltools-1.2.1/urltools/man/url_parameters.Rd |only urltools-1.3.1/urltools/DESCRIPTION | 8 - urltools-1.3.1/urltools/MD5 | 45 +++--- urltools-1.3.1/urltools/NAMESPACE | 4 urltools-1.3.1/urltools/NEWS | 24 +++ urltools-1.3.1/urltools/R/RcppExports.R | 109 +++++++++++---- urltools-1.3.1/urltools/R/suffix.R | 48 ------ urltools-1.3.1/urltools/R/urltools.R | 8 - urltools-1.3.1/urltools/README.md | 2 urltools-1.3.1/urltools/inst/doc/urltools.R | 32 +++- urltools-1.3.1/urltools/inst/doc/urltools.Rmd | 56 +++++-- urltools-1.3.1/urltools/inst/doc/urltools.html | 54 +++++-- urltools-1.3.1/urltools/man/param_get.Rd |only urltools-1.3.1/urltools/man/param_remove.Rd |only urltools-1.3.1/urltools/man/param_set.Rd |only urltools-1.3.1/urltools/man/suffix_dataset.Rd | 1 urltools-1.3.1/urltools/man/suffix_extract.Rd | 3 urltools-1.3.1/urltools/src/RcppExports.cpp | 49 +++++- urltools-1.3.1/urltools/src/param.cpp |only urltools-1.3.1/urltools/src/parameter.cpp |only urltools-1.3.1/urltools/src/parameter.h |only urltools-1.3.1/urltools/src/parsing.cpp | 76 +++++----- urltools-1.3.1/urltools/src/parsing.h | 42 ++--- urltools-1.3.1/urltools/src/urltools.cpp | 42 ----- urltools-1.3.1/urltools/tests/testthat/test_parameters.R |only urltools-1.3.1/urltools/tests/testthat/test_parsing.R | 31 ++-- urltools-1.3.1/urltools/vignettes/urltools.Rmd | 56 +++++-- 28 files changed, 411 insertions(+), 279 deletions(-)
Title: Interface to the Global 'Biodiversity' Information Facility
'API'
Description: A programmatic interface to the Web Service methods
provided by the Global Biodiversity Information Facility ('GBIF').
'GBIF' is a database of species occurrence records from sources all
over the globe. 'rgbif' includes functions for searching for
taxonomic names, retrieving information on data providers,
getting species occurrence records, and getting counts of
occurrence records.
Author: Scott Chamberlain [aut, cre],
Karthik Ram [aut],
Vijay Barve [aut],
Dan Mcglinn [aut]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between rgbif versions 0.8.8 dated 2015-07-24 and 0.8.9 dated 2015-10-07
DESCRIPTION | 6 MD5 | 72 ++-- R/dataset_metrics.r | 20 - R/downloads.R | 40 +- R/elevation.r | 67 ++-- R/name_lookup.r | 4 R/name_usage.r | 59 +-- R/occ_count.r | 2 R/occ_download.R | 14 R/occ_download_import.R | 1 R/occ_search.r | 10 R/rgbif-package.r | 1 R/zzz.r | 26 - README.md | 99 +++-- build/vignette.rds |binary inst/assets/img/unnamed-chunk-8-1.png |binary inst/doc/issues_vignette.Rmd | 153 ++++----- inst/doc/issues_vignette.html | 153 ++++----- inst/doc/rgbif_vignette.html | 563 +++++++++++++++++----------------- inst/vign/figure/gbifmap1-1.png |binary inst/vign/issues_vignette.md | 153 ++++----- inst/vign/rgbif_vignette.Rmd | 2 inst/vign/rgbif_vignette.md | 561 +++++++++++++++++---------------- man/dataset_metrics.Rd | 4 man/downloads.Rd | 12 man/name_usage.Rd | 4 man/occ_count.Rd | 2 man/occ_download.Rd | 11 tests/testthat/test-dataset_metrics.r | 11 tests/testthat/test-dataset_suggest.r | 4 tests/testthat/test-elevation.R | 22 + tests/testthat/test-gbifmap.r | 3 tests/testthat/test-name_lookup.r | 7 tests/testthat/test-name_usage.r | 168 +++++++++- tests/testthat/test-occ_search.r | 82 +++- vignettes/issues_vignette.Rmd | 153 ++++----- vignettes/rgbif_vignette.Rmd | 561 +++++++++++++++++---------------- 37 files changed, 1686 insertions(+), 1364 deletions(-)
Title: Visualisation of Sequential Probability Distributions Using Fan
Charts
Description: Visualise sequential distributions using a range of plotting
styles. Sequential distribution data can be input as either simulations or
values corresponding to percentiles over time. Plots are added to
existing graphic devices using the fan function. Users can choose from four
different styles, including fan chart type plots, where a set of coloured
polygon, with shadings corresponding to the percentile values are layered
to represent different uncertainty levels.
Author: Guy J. Abel
Maintainer: "Guy J. Abel" <g.j.abel@gmail.com>
Diff between fanplot versions 3.4.0 dated 2015-01-28 and 3.4.1 dated 2015-10-07
DESCRIPTION | 8 ++++---- MD5 | 12 +++++++----- NAMESPACE | 5 +++++ R/fan.R | 3 ++- R/fan0.R | 10 ++++------ inst/CITATION |only man/fan.Rd | 9 +++++++-- man/fanplot-pacakge.Rd |only 8 files changed, 29 insertions(+), 18 deletions(-)
Title: Benford Analysis for Data Validation and Forensic Analytics
Description: The Benford Analysis package provides tools that make it easier to
validate data using Benford's Law.
Author: Carlos Cinelli
Maintainer: Carlos Cinelli <carloscinelli@hotmail.com>
Diff between benford.analysis versions 0.1.1 dated 2014-05-01 and 0.1.2.1 dated 2015-10-07
DESCRIPTION | 10 +- MD5 | 68 +++++++------- NAMESPACE | 51 ++++++----- R/data.documentation.R | 174 +++++++++++++++++++------------------- R/functions-new.R | 10 +- R/get.functions.R | 18 +-- R/internal.functions-new-code-2.R | 12 -- README.md |only man/MAD.Rd | 9 + man/benford.Rd | 143 ++++++++++++++----------------- man/benford.analysis.Rd | 45 +++------ man/census.2000_2010.Rd | 9 - man/census.2009.Rd | 6 - man/chisq.Rd | 12 +- man/corporate.payment.Rd | 10 +- man/dfactor.Rd | 9 + man/duplicatesTable.Rd | 8 - man/extract.digits.Rd | 53 ++++------- man/getBfd.Rd | 10 +- man/getData.Rd | 13 +- man/getDigits.Rd | 15 +-- man/getDuplicates.Rd | 10 +- man/getSuspects.Rd | 20 +--- man/lakes.perimeter.Rd | 10 +- man/mantissa.Rd | 10 +- man/marc.Rd | 12 +- man/p.these.digits.Rd | 4 man/p.this.digit.at.n.Rd | 10 +- man/plot.Benford.Rd | 20 +--- man/print.Benford.Rd | 10 +- man/sino.forest.Rd | 9 - man/suspectsTable.Rd | 18 +-- man/taxable.incomes.1978.Rd | 9 - tests/testthat/test-benford.R | 33 ++++++- tests/testthat/test-extract.R | 108 ++++++++++++----------- tests/testthat/test-get.R |only 36 files changed, 488 insertions(+), 480 deletions(-)
More information about benford.analysis at CRAN
Permanent link
Title: Matrix Exponential
Description: Computation of the matrix exponential, logarithm, and related quantities.
Author: Vincent Goulet, Christophe Dutang, Martin Maechler,
David Firth, Marina Shapira, Michael Stadelmann,
expm-developers@lists.R-forge.R-project.org
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between expm versions 0.99-1.1 dated 2014-02-12 and 0.999-0 dated 2015-10-07
ChangeLog | 17 + DESCRIPTION | 16 - MD5 | 84 ++++---- NAMESPACE | 10 R/balance.R | 2 R/expm.R | 29 +- R/expm2.R | 287 ++++++++++++++-------------- R/expmCond-all.R | 24 -- R/expm_vec.R | 2 R/logm.Higham08.R | 28 ++ R/logm.R | 2 R/sqrtm.R | 2 build/vignette.rds |binary demo/balanceTst.R | 8 demo/exact-fn.R | 4 demo/expm.R | 2 inst/doc/expm.R | 1 inst/doc/expm.pdf |binary inst/po/en@quot |only inst/po/fr/LC_MESSAGES/expm.mo |only inst/test-tools.R | 2 man/balance.Rd | 5 man/expAtv.Rd | 2 man/expm.Rd | 26 +- man/expmCond.Rd | 4 man/expmFrechet.Rd | 2 man/logm.Rd | 11 - po/R-expm.pot |only po/expm.pot | 78 ++++++- po/fr.po | 88 +++++++- src/R_dgebal.c | 19 + src/expm.h | 5 src/init.c | 3 src/matexp_MH09.c |only src/matpow.c | 13 - src/matrexp.f | 12 - src/matrexpO.f | 420 +++++++++++++++++++++-------------------- src/mexp-common.f | 23 +- tests/bal-ex.R | 15 + tests/ex.R | 68 +++--- tests/ex2.R | 21 +- tests/exact-ex.R | 83 +++++--- tests/expm-Cond.R | 16 - tests/log+sqrt.R | 23 +- tests/matpow-ex.R |only 45 files changed, 870 insertions(+), 587 deletions(-)
Title: A Powerful Tool to Quickly Compare Huge Lists and Draw Venn
Diagrams
Description: Compare lists (from 2 to infinite) and plot the results in a Venn diagram if (N<=4) with regulation details. It allows to produce a complete annotated file, merging the annotations of the compared lists. It is also possible to compute an overlaps table to show the overlaps proportions of all the couples of lists and draw proportional Venn diagrams.
Author: Nicolas Cagnard
Maintainer: Nicolas Cagnard <nicolas.cagnard@gmail.com>
Diff between eVenn versions 2.2 dated 2015-03-10 and 2.2.1 dated 2015-10-07
DESCRIPTION | 12 - MD5 | 18 - NAMESPACE | 6 R/autoevenn.R | 22 -- R/evenn.R | 502 +++++++++++++++++++++++++++++++-------------------- R/man.evenn.R | 56 +++-- man/autoevenn.Rd | 5 man/eVenn-package.Rd | 7 man/evenn.Rd | 14 - man/man.evenn.Rd | 2 10 files changed, 385 insertions(+), 259 deletions(-)
Title: Response-Surface Analysis
Description: Provides functions to generate response-surface designs, fit first- and second-order response-surface models, make surface plots, obtain the path of steepest ascent, and do canonical analysis.
Author: Russell V. Lenth
Maintainer: Russell V Lenth <russell-lenth@uiowa.edu>
Diff between rsm versions 2.7-3 dated 2015-09-03 and 2.7-4 dated 2015-10-07
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/rsm.R | 7 +++++-- inst/NEWS | 4 ++++ inst/doc/rs-illus.pdf |binary inst/doc/rsm-plots.pdf |binary inst/doc/rsm.pdf |binary 7 files changed, 19 insertions(+), 12 deletions(-)
Title: Import Stata Data Files
Description: Function to read and write the Stata file format.
Author: Jan Marvin Garbuszus [aut],
Sebastian Jeworutzki [aut, cre],
R Core Team [cph]
Maintainer: Sebastian Jeworutzki <Sebastian.Jeworutzki@ruhr-uni-bochum.de>
Diff between readstata13 versions 0.7.1 dated 2015-08-07 and 0.8 dated 2015-10-07
readstata13-0.7.1/readstata13/src/statadefines.h |only readstata13-0.7.1/readstata13/src/swap_endian.h |only readstata13-0.8/readstata13/DESCRIPTION | 10 readstata13-0.8/readstata13/MD5 | 45 readstata13-0.8/readstata13/NAMESPACE | 1 readstata13-0.8/readstata13/NEWS | 8 readstata13-0.8/readstata13/R/RcppExports.R | 17 readstata13-0.8/readstata13/R/dbcal.R | 1 readstata13-0.8/readstata13/R/read.R | 246 +++-- readstata13-0.8/readstata13/R/readstata13.R | 8 readstata13-0.8/readstata13/R/save.R | 205 +++- readstata13-0.8/readstata13/R/tools.R | 2 readstata13-0.8/readstata13/README.md | 26 readstata13-0.8/readstata13/inst/include |only readstata13-0.8/readstata13/man/read.dta13.Rd | 110 +- readstata13-0.8/readstata13/man/readstata13.Rd | 4 readstata13-0.8/readstata13/man/save.dta13.Rd | 49 - readstata13-0.8/readstata13/man/stata_pre13_save.Rd |only readstata13-0.8/readstata13/src/Makevars |only readstata13-0.8/readstata13/src/Makevars.win |only readstata13-0.8/readstata13/src/RcppExports.cpp | 28 readstata13-0.8/readstata13/src/rcpp_pre13_savestata.cpp |only readstata13-0.8/readstata13/src/rcpp_readstata.cpp | 718 --------------- readstata13-0.8/readstata13/src/rcpp_savestata.cpp | 160 ++- readstata13-0.8/readstata13/src/read_dta.cpp |only readstata13-0.8/readstata13/src/read_pre13_dta.cpp |only 26 files changed, 639 insertions(+), 999 deletions(-)
Title: Paternity Exclusion in Autopolyploid Species
Description: Functions to perform paternity exclusion via allele
matching, in autopolyploid species having ploidy 4, 6, or 8. The
marker data data used can be genotypic (copy numbers known) or
'phenotypic' (copy numbers not known).
Author: Alexander Zwart
Maintainer: Alexander Zwart <Alec.Zwart@csiro.au>
Diff between PolyPatEx versions 0.9 dated 2014-07-02 and 0.9.1 dated 2015-10-07
DESCRIPTION | 12 +++--- LICENSE | 4 +- MD5 | 54 +++++++++++++-------------- NAMESPACE | 5 ++ R/PolyPatEx-package.R | 76 +++++++++++++++++++-------------------- R/convertToPhenot.R | 8 ++-- R/genotPPE.R | 5 +- R/inputData.R | 3 + R/multilocusTypes.R | 9 ++-- R/phenotPPE.R | 5 +- R/potentialFatherIDs.R | 3 + build/vignette.rds |binary inst/doc/PolyPatEx-vignette.Rnw | 20 +++++----- inst/doc/PolyPatEx-vignette.pdf |binary man/FR_Genotype.Rd | 3 + man/GF_Phenotype.Rd | 3 + man/PolyPatEx-package.Rd | 3 + man/convertToPhenot.Rd | 3 + man/fixCSV.Rd | 3 + man/foreignAlleles.Rd | 3 + man/genotPPE.Rd | 3 + man/inputData.Rd | 3 + man/multilocusTypes.Rd | 3 + man/phenotPPE.Rd | 3 + man/potentialFatherCounts.Rd | 3 + man/potentialFatherIDs.Rd | 3 + man/preprocessData.Rd | 3 + vignettes/PolyPatEx-vignette.Rnw | 20 +++++----- 28 files changed, 144 insertions(+), 119 deletions(-)
Title: Extended Structural Equation Modelling
Description: Facilitates treatment of statistical model specifications
as things that can be generated and manipulated programmatically.
Structural equation models may be specified with reticular action model matrices or paths,
linear structural relations matrices or paths, or
directly in matrix algebra.
Fit functions include full information maximum likelihood,
maximum likelihood, and weighted least squares.
Example models include confirmatory factor, multiple group, mixture
distribution, categorical threshold, modern test theory, differential
equations, state space, and many others.
Author: Steven M. Boker [aut],
Michael C. Neale [aut],
Hermine H. Maes [aut],
Michael J. Wilde [ctb],
Michael Spiegel [aut],
Timothy R. Brick [aut],
Ryne Estabrook [aut],
Timothy C. Bates [aut],
Paras Mehta [ctb],
Timo von Oertzen [ctb],
Ross J. Gore [aut],
Michael D. Hunter [aut],
Daniel C. Hackett [ctb],
Julian Karch [ctb],
Andreas M. Brandmaier [ctb],
Joshua N. Pritikin [aut, cre],
Mahsa Zahery [aut],
Robert M. Kirkpatrick [aut],
Yang Wang [ctb],
Charles Driver [ctb]
Maintainer: Joshua N. Pritikin <jpritikin@pobox.com>
Diff between OpenMx versions 2.2.6 dated 2015-07-17 and 2.3.1 dated 2015-10-07
DESCRIPTION | 10 MD5 | 415 ++++++++-------- NAMESPACE | 1 R/MxAlgebra.R | 5 R/MxCompute.R | 8 R/MxDataWLS.R | 2 R/MxExpectation.R | 15 R/MxExpectationGREML.R | 18 R/MxExpectationLISREL.R | 207 +++---- R/MxExpectationNormal.R | 169 +++--- R/MxExpectationRAM.R | 73 +- R/MxExpectationStateSpace.R | 4 R/MxFactorScores.R | 91 +++ R/MxFitFunctionGREML.R | 9 R/MxFitFunctionWLS.R | 87 ++- R/MxMatrix.R | 8 R/MxModelFunctions.R | 13 R/MxRestore.R | 36 + R/MxRun.R | 406 ++++++++------- R/MxRunHelperFunctions.R | 1 R/MxSummary.R | 19 R/MxVersion.R | 2 R/sysdata.rda |binary data/LongitudinalOverdispersedCounts.rda |only data/datalist | 1 inst/CITATION | 2 inst/models/enormous/lib/stderrlib.R | 5 inst/models/nightly/FactorScores.R | 46 + inst/models/nightly/GREML_monophenotype_1GRM.R |only inst/models/nightly/GREML_monophenotype_1GRM_GradDesc.R |only inst/models/passing/ContinuousOnlyWLSTest.R | 2 inst/models/passing/GeneralizedEstimatingEquations.R |only inst/models/passing/IntroSEM-BivariateStd.R | 7 inst/models/passing/IntroSEM-ThreeFactorScale2Test.R | 3 inst/models/passing/MatrixCreation.R | 19 inst/models/passing/MatrixErrorDetection.R | 7 inst/models/passing/MultilevelUniRandomSlopeInt.R | 25 inst/models/passing/MultipleGroupWLS.R |only inst/models/passing/RemoveEntriesTest.R | 19 inst/models/passing/SimpleConfidenceIntervals.R | 5 inst/models/passing/SimpleMLAlgebraCIs.R | 5 inst/models/passing/StateSpaceInputs.R | 47 + inst/models/passing/UnivariateRandomInterceptWide.R | 49 + inst/models/passing/rfitfunc.R | 9 man/BaseCompute-class.Rd | 3 man/LongitudinalOverdispersedCounts.Rd |only man/MxAlgebraFormula-class.Rd | 3 man/MxBaseExpectation-class.Rd | 3 man/MxBaseFitFunction-class.Rd | 3 man/MxBaseNamed-class.Rd | 3 man/MxBaseObjectiveMetaData-class.Rd | 3 man/MxCharOrList-class.Rd | 3 man/MxCharOrNumber-class.Rd | 3 man/MxCompute-class.Rd | 3 man/MxDataFrameOrMatrix-class.Rd | 3 man/MxDataStatic-class.Rd | 3 man/MxDirectedGraph-class.Rd | 3 man/MxExpectationXclass.Rd | 3 man/MxFitFunction-class.Rd | 3 man/MxFlatModel-class.Rd | 3 man/MxInterval-class.Rd | 3 man/MxLISRELModel-class.Rd | 3 man/MxListOrNull-class.Rd | 3 man/MxOptionalChar-class.Rd | 3 man/MxOptionalCharOrNumber-class.Rd | 3 man/MxOptionalLogical-class.Rd | 3 man/MxOptionalMatrix-class.Rd | 3 man/MxOptionalNumeric-class.Rd | 3 man/MxRAMGraph-class.Rd | 3 man/MxRAMMetaData-class.Rd | 3 man/MxRAMModel-class.Rd | 3 man/OpenMx.Rd | 3 man/expm.Rd | 3 man/genericFitDependencies-MxBaseFitFunction-method.Rd | 3 man/imxAddDependency.Rd | 3 man/imxCheckMatrices.Rd | 3 man/imxCheckVariables.Rd | 3 man/imxConDecMatrixSlots.Rd | 3 man/imxConstraintRelations.Rd | 3 man/imxConvertIdentifier.Rd | 3 man/imxConvertLabel.Rd | 3 man/imxConvertSubstitution.Rd | 3 man/imxCreateMatrix.Rd | 3 man/imxDataTypes.Rd | 3 man/imxDefaultGetSlotDisplayNames.Rd | 3 man/imxDeparse.Rd | 3 man/imxDependentModels.Rd | 3 man/imxDetermineDefaultOptimizer.Rd | 3 man/imxDiff.Rd | 3 man/imxDmvnorm.Rd | 3 man/imxEvalByName.Rd | 3 man/imxExtractMethod.Rd | 3 man/imxExtractNames.Rd | 3 man/imxExtractReferences.Rd | 3 man/imxExtractSlot.Rd | 3 man/imxFlattenModel.Rd | 3 man/imxFreezeModel.Rd | 3 man/imxGenSwift.Rd | 3 man/imxGenerateLabels.Rd | 3 man/imxGenerateNamespace.Rd | 3 man/imxGenericModelBuilder.Rd | 3 man/imxGetSlotDisplayNames.Rd | 3 man/imxHasNPSOL.Rd | 3 man/imxHasOpenMP.Rd | 3 man/imxIdentifier.Rd | 3 man/imxIndependentModels.Rd | 3 man/imxInitModel.Rd | 3 man/imxIsDefinitionVariable.Rd | 3 man/imxIsPath.Rd | 3 man/imxLocateFunction.Rd | 3 man/imxLocateIndex.Rd | 3 man/imxLocateLabel.Rd | 3 man/imxLog.Rd | 3 man/imxLookupSymbolTable.Rd | 3 man/imxModelBuilder.Rd | 3 man/imxModelTypes.Rd | 3 man/imxMpiWrap.Rd | 3 man/imxOriginalMx.Rd | 3 man/imxPPML.Rd | 3 man/imxPPML.Test.Battery.Rd | 3 man/imxPPML.Test.Test.Rd | 3 man/imxPreprocessModel.Rd | 3 man/imxReplaceMethod.Rd | 3 man/imxReplaceModels.Rd | 3 man/imxReplaceSlot.Rd | 3 man/imxReservedNames.Rd | 3 man/imxReverseIdentifier.Rd | 3 man/imxSameType.Rd | 3 man/imxSeparatorChar.Rd | 3 man/imxSfClient.Rd | 3 man/imxSimpleRAMPredicate.Rd | 3 man/imxSparseInvert.Rd | 3 man/imxSquareMatrix.Rd | 3 man/imxSymmetricMatrix.Rd | 3 man/imxTypeName.Rd | 3 man/imxUntitledName.Rd | 3 man/imxUntitledNumber.Rd | 3 man/imxUntitledNumberReset.Rd | 3 man/imxUpdateModelValues.Rd | 3 man/imxVariableTypes.Rd | 3 man/imxVerifyMatrix.Rd | 3 man/imxVerifyModel.Rd | 3 man/imxVerifyName.Rd | 3 man/imxVerifyReference.Rd | 3 man/logm.Rd | 3 man/mxAlgebraFromString.Rd | 3 man/mxAvailableOptimizers.Rd | 3 man/mxComputeConfidenceInterval.Rd | 3 man/mxComputeDefault.Rd | 3 man/mxComputeEM.Rd | 3 man/mxComputeGradientDescent.Rd | 11 man/mxComputeHessianQuality.Rd | 3 man/mxComputeIterate.Rd | 3 man/mxComputeNewtonRaphson.Rd | 3 man/mxComputeNothing.Rd | 3 man/mxComputeNumericDeriv.Rd | 3 man/mxComputeOnce.Rd | 3 man/mxComputeReportDeriv.Rd | 3 man/mxComputeSequence.Rd | 3 man/mxComputeStandardError.Rd | 3 man/mxDataDynamic.Rd | 3 man/mxExpectationBA81.Rd | 3 man/mxFactorScores.Rd | 14 man/mxFitFunctionMultigroup.Rd | 10 man/mxGenerateData.Rd | 5 man/mxGetExpected.Rd | 15 man/mxMI.Rd | 3 man/mxMakeNames.Rd | 3 man/mxMatrix.Rd | 17 man/mxOption.Rd | 3 man/mxRestore.Rd | 10 man/mxSetDefaultOptions.Rd | 3 man/mxSimplify2Array.Rd | 3 man/mxTryHard.Rd | 6 man/omxCheckCloseEnough.Rd | 3 man/omxCheckError.Rd | 3 man/omxCheckNamespace.Rd | 3 man/omxCheckWarning.Rd | 3 man/omxConstrainMLThresholds.Rd | 3 man/omxDetectCores.Rd | 3 man/omxGetNPSOL.Rd | 3 man/omxGetRAMDepth.Rd | 3 man/omxManifestModelByParameterJacobian.Rd |only man/omxNameAnonymousParameters.Rd | 3 man/omxNormalQuantiles.Rd | 3 man/omxParallelCI.Rd | 3 man/omxQuotes.Rd | 3 man/omxRAMtoML.Rd | 3 man/omxSaturatedModel.Rd | 2 man/summary-MxModel.Rd | 13 src/Compute.cpp | 11 src/Compute.h | 2 src/ComputeGD.cpp | 31 + src/glue.cpp | 2 src/nloptcpp.cpp | 2 src/omxAlgebra.cpp | 5 src/omxData.cpp | 43 - src/omxData.h | 11 src/omxDefines.h | 1 src/omxFIMLSingleIteration.cpp | 19 src/omxGREMLExpectation.cpp | 7 src/omxGREMLfitfunction.cpp | 125 ++-- src/omxHessianCalculation.cpp | 9 src/omxImportFrontendState.cpp | 4 src/omxMatrix.cpp | 8 src/omxMatrix.h | 11 src/omxRowFitFunction.cpp | 3 src/omxSadmvnWrapper.cpp | 2 src/omxState.cpp | 52 +- src/omxState.h | 7 src/omxStateSpaceExpectation.cpp | 14 src/omxWLSFitFunction.cpp | 19 212 files changed, 1681 insertions(+), 1062 deletions(-)
Title: Solving Least Squares Problems under Equality/Inequality
Constraints
Description: It contains functions that solve least squares linear
regression problems under linear equality/inequality
constraints. It is developed based on the 'Fortran' program of
Lawson and Hanson (1974, 1995), which is public domain and
available at http://www.netlib.org/lawson-hanson.
Author: Yong Wang [aut, cre],
Charles L. Lawson [aut],
Richard J. Hanson [aut]
Maintainer: Yong Wang <yongwang@auckland.ac.nz>
Diff between lsei versions 1.1-0 dated 2015-09-27 and 1.1-1 dated 2015-10-07
Changes | 7 +++++ DESCRIPTION | 11 ++++---- MD5 | 14 +++++----- NAMESPACE | 2 - R/lsei.R | 77 ++++++++++++++++++++++++++++++++++++++++++++++++++--------- man/hfti.Rd | 12 ++++----- man/lsei.Rd | 78 ++++++++++++++++++++++++++++++++++++++++++++++-------------- man/nnls.Rd | 75 +++++++++++++++++++++++++++++++++++++++++++++------------ 8 files changed, 211 insertions(+), 65 deletions(-)
Title: Empirical Bayesian Elastic Net
Description: Provides the Empirical Bayesian Elastic Net for handling multicollinearity in generalized linear regression models. As a special case of the 'EBglmnet'
package (also available on CRAN), this package encourages a grouping effects to select relevant variables and estimate the corresponding non-zero effects.
Author: Anhui Huang
Maintainer: Anhui Huang <a.huang1@umiami.edu>
Diff between EBEN versions 4.1 dated 2015-06-26 and 4.6 dated 2015-10-07
DESCRIPTION | 8 MD5 | 26 NAMESPACE | 3 R/EBelasticNet.Binomial.R | 2 R/EBelasticNet.BinomialCV.R | 44 + R/EBelasticNet.Gaussian.R | 22 R/EBelasticNet.GaussianCV.R | 13 man/EBEN-package.Rd | 5 man/EBelasticNet.Binomial.Rd | 8 man/EBelasticNet.BinomialCV.Rd | 11 src/ElasticNetBinaryNEmainEff.c | 605 ++++++++++++++++--- src/ElasticNetBinaryNeFull.c | 1211 ++++++++++++++++++++++++++++++++++------ src/elasticNetLinearNeFull2.c | 140 +++- src/elasticNetLinearNeMainEff.c | 330 +++++++--- 14 files changed, 1924 insertions(+), 504 deletions(-)
Title: Interface to Diverse Estimation Methods of Causal Networks
Description: Unified interface for the estimation of causal networks,
including the methods 'backShift' (from package 'backShift'),
'bivariateANM' (bivariate additive noise model),
'bivariateCAM' (bivariate causal additive model),
'CAM' (causal additive model) (from package 'CAM'),
'hiddenICP' (invariant causal prediction with hidden variables),
'ICP' (invariant causal prediction) (from package 'InvariantCausalPrediction'),
'GES' (greedy equivalence search),
'GIES' (greedy interventional equivalence search),
'LINGAM', 'PC' (PC Algorithm),
'RFCI' (really fast causal inference)
(all from package 'pcalg') and regression.
Author: Christina Heinze <heinze@stat.math.ethz.ch>,
Nicolai Meinshausen <meinshausen@stat.math.ethz.ch>
Maintainer: Christina Heinze <heinze@stat.math.ethz.ch>
Diff between CompareCausalNetworks versions 0.1.1 dated 2015-06-23 and 0.1.4 dated 2015-10-07
DESCRIPTION | 10 ++++----- MD5 | 10 ++++----- NAMESPACE | 3 ++ R/runHiddenICP.R | 14 +++++++------ R/runICP.R | 19 +++++++++--------- tests/testthat/test_getParents_defaults_all_methods.R | 3 -- 6 files changed, 32 insertions(+), 27 deletions(-)
More information about CompareCausalNetworks at CRAN
Permanent link
Title: Breiman and Cutler's Random Forests for Classification and
Regression
Description: Classification and regression based on a forest of trees
using random inputs.
Author: Fortran original by Leo Breiman and Adele Cutler, R port by
Andy Liaw and Matthew Wiener.
Maintainer: Andy Liaw <andy_liaw@merck.com>
Diff between randomForest versions 4.6-10 dated 2014-07-17 and 4.6-12 dated 2015-10-07
DESCRIPTION | 14 +++++++------- MD5 | 24 ++++++++++++------------ NAMESPACE | 9 +++++++++ R/MDSplot.R | 4 ++-- R/combine.R | 33 ++++++++++++++++++--------------- R/margin.R | 4 ++-- R/randomForest.default.R | 4 +++- inst/NEWS | 13 +++++++++++++ man/randomForest.Rd | 2 +- man/rfImpute.Rd | 2 +- src/regrf.c | 6 +++--- src/rf.c | 14 +++++++------- src/rfutils.c | 2 +- 13 files changed, 79 insertions(+), 52 deletions(-)